Variant report

Variant	rs9805049
Chromosome Location	chr12:1893650-1893651
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:1875581..1877544-chr12:1893631..1897459,3	MCF-7	breast:
2	chr12:1888574..1891262-chr12:1892199..1893915,2	MCF-7	breast:
3	chr12:1890411..1894703-chr12:1895509..1898196,4	K562	blood:
4	chr12:1892244..1894703-chr12:1895509..1898196,2	K562	blood:

Variant related genes	Relation type
ENSG00000006831	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10128890	0.85[CEU][hapmap];0.91[GIH][hapmap]
rs1044471	1.00[CHB][hapmap];0.82[CHD][hapmap];0.89[GIH][hapmap];0.95[JPT][hapmap];0.80[MEX][hapmap];0.91[TSI][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1044825	0.85[CEU][hapmap];0.91[GIH][hapmap]
rs10735003	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10744552	0.85[CEU][hapmap];0.91[GIH][hapmap]
rs10773980	0.81[ASN][1000 genomes]
rs10773988	0.84[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.89[ASN][1000 genomes]
rs10773989	0.81[CEU][hapmap];0.82[CHB][hapmap]
rs10773991	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10848548	1.00[CHB][hapmap];0.87[CHD][hapmap];0.81[JPT][hapmap]
rs10848550	0.88[CEU][hapmap]
rs10848557	0.85[CEU][hapmap];0.95[CHB][hapmap];0.81[JPT][hapmap];0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10848561	0.82[EUR][1000 genomes]
rs10848563	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10848565	0.87[ASN][1000 genomes]
rs10848567	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10848571	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11061971	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11612383	0.82[CHB][hapmap]
rs11614639	0.96[CEU][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12316367	1.00[CHB][hapmap];0.85[JPT][hapmap];0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs13219	0.85[CEU][hapmap];0.91[GIH][hapmap]
rs2068485	0.92[CEU][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2068491	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2108642	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2190556	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2286379	0.85[CEU][hapmap];0.88[GIH][hapmap]
rs2286383	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2286384	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3759374	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4140992	0.84[ASN][1000 genomes]
rs4765843	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4765844	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4766415	0.96[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.89[GIH][hapmap];0.95[JPT][hapmap];0.84[MEX][hapmap];0.89[TSI][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6489326	0.95[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7138924	0.85[CEU][hapmap]
rs7294540	0.85[CEU][hapmap];0.91[GIH][hapmap]
rs7294668	0.96[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7296521	0.81[ASN][1000 genomes]
rs7955261	0.84[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.81[JPT][hapmap];0.80[ASN][1000 genomes]
rs7974422	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7974924	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7976827	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7978362	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7978783	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9300298	0.93[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.88[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];0.92[MEX][hapmap];0.98[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9739162	0.81[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.89[GIH][hapmap];0.86[JPT][hapmap];0.88[MEX][hapmap];0.83[TSI][hapmap];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042863	chr12:1163817-1902302	Enhancers Genic enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
2	nsv541345	chr12:1163817-1902302	Strong transcription Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	nsv832305	chr12:1769852-1936054	Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
4	nsv948480	chr12:1776217-2284333	Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
5	nsv832306	chr12:1847726-2001308	Genic enhancers Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
6	nsv1038425	chr12:1857052-1902302	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
7	nsv430442	chr12:1889823-1982151	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
8	nsv556996	chr12:1891372-1934920	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:1816200-1897400	Weak transcription	Aorta	Aorta
2	chr12:1849800-1905600	Weak transcription	Small Intestine	intestine
3	chr12:1850400-1904800	Weak transcription	Fetal Kidney	kidney
4	chr12:1862000-1894800	Weak transcription	Colonic Mucosa	Colon
5	chr12:1868200-1901800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr12:1878600-1897800	Strong transcription	Monocytes-CD14+_RO01746	blood
7	chr12:1879000-1904800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr12:1880600-1894600	Weak transcription	Esophagus	oesophagus
9	chr12:1881600-1897400	Strong transcription	Primary monocytes fromperipheralblood	blood
10	chr12:1881600-1897600	Strong transcription	Dnd41	blood
11	chr12:1881600-1897800	Strong transcription	Fetal Thymus	thymus
12	chr12:1882000-1898200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr12:1882400-1896000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
14	chr12:1882600-1904800	Weak transcription	Stomach Mucosa	stomach
15	chr12:1885200-1904600	Weak transcription	Fetal Brain Male	brain
16	chr12:1885400-1897800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr12:1885400-1898000	Strong transcription	Primary T cells from cord blood	blood
18	chr12:1885600-1895200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr12:1885600-1897600	Strong transcription	Rectal Mucosa Donor 31	rectum
20	chr12:1885600-1902600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr12:1885800-1896600	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr12:1885800-1904000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr12:1886000-1894600	Weak transcription	Pancreas	Pancrea
24	chr12:1886000-1904200	Weak transcription	Rectal Smooth Muscle	rectum
25	chr12:1886000-1905000	Weak transcription	Fetal Brain Female	brain
26	chr12:1886200-1897800	Strong transcription	Primary T cells fromperipheralblood	blood
27	chr12:1886200-1905400	Weak transcription	Pancreatic Islets	Pancreatic Islet
28	chr12:1886800-1897200	Strong transcription	Primary B cells from peripheral blood	blood
29	chr12:1886800-1897600	Strong transcription	Rectal Mucosa Donor 29	rectum
30	chr12:1886800-1897800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
31	chr12:1887000-1896800	Strong transcription	Primary T helper cells fromperipheralblood	blood
32	chr12:1887000-1897400	Strong transcription	Primary B cells from cord blood	blood
33	chr12:1887000-1897600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr12:1887000-1897800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr12:1887200-1905000	Weak transcription	Placenta Amnion	Placenta Amnion
36	chr12:1887600-1896400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
37	chr12:1887800-1899000	Strong transcription	Duodenum Mucosa	Duodenum
38	chr12:1888000-1897800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr12:1888800-1894600	Weak transcription	HSMM	muscle
40	chr12:1889200-1894600	Weak transcription	HMEC	breast
41	chr12:1889200-1904800	Weak transcription	Right Atrium	heart
42	chr12:1889400-1897400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr12:1889400-1904200	Weak transcription	Brain Germinal Matrix	brain
44	chr12:1889600-1898000	Strong transcription	GM12878-XiMat	blood
45	chr12:1889600-1904000	Weak transcription	Colon Smooth Muscle	Colon
46	chr12:1889600-1905000	Weak transcription	Muscle Satellite Cultured Cells	--
47	chr12:1889800-1895000	Weak transcription	Duodenum Smooth Muscle	Duodenum
48	chr12:1889800-1895200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr12:1889800-1897600	Strong transcription	A549	lung
50	chr12:1890000-1894400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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